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/* File: exonview.c
* Author: Gemma Barson, 2009-12-24
* Copyright (c) 2009 - 2012 Genome Research Ltd
* ---------------------------------------------------------------------------
* SeqTools is free software; you can redistribute it and/or
* modify it under the terms of the GNU General Public License
* as published by the Free Software Foundation; either version 3
* of the License, or (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with this program; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place - Suite 330, Boston, MA 02111-1307, USA.
* or see the on-line version at http://www.gnu.org/copyleft/gpl.txt
* ---------------------------------------------------------------------------
* This file is part of the SeqTools sequence analysis package,
* written by
* Gemma Barson (Sanger Institute, UK) <gb10@sanger.ac.uk>
*
* based on original code by
* Erik Sonnhammer (SBC, Sweden) <Erik.Sonnhammer@sbc.su.se>
*
* and utilizing code taken from the AceDB and ZMap packages, written by
* Richard Durbin (Sanger Institute, UK) <rd@sanger.ac.uk>
* Jean Thierry-Mieg (CRBM du CNRS, France) <mieg@kaa.crbm.cnrs-mop.fr>
* Ed Griffiths (Sanger Institute, UK) <edgrif@sanger.ac.uk>
* Roy Storey (Sanger Institute, UK) <rds@sanger.ac.uk>
* Malcolm Hinsley (Sanger Institute, UK) <mh17@sanger.ac.uk>
*
* Description: See exonview.h
*----------------------------------------------------------------------------
*/
#include <blixemApp/exonview.hpp>
#include <blixemApp/blxcontext.hpp>
#include <blixemApp/detailviewtree.hpp>
#include <blixemApp/bigpicture.hpp>
#include <blixemApp/bigpicturegrid.hpp>
#include <blixemApp/detailview.hpp>
#include <blixemApp/blxwindow.hpp>
#include <seqtoolsUtils/utilities.hpp>
#include <seqtoolsUtils/blxmsp.hpp>
#include <blixemApp/blxpanel.hpp>
#include <string.h>
#include <stdlib.h>
#include <algorithm>
using namespace std;
#define DEFAULT_EXON_HEIGHT 10
#define DEFAULT_EXON_HEIGHT_BUMPED 7
#define DEFAULT_EXON_YPAD 4
#define DEFAULT_EXON_YPAD_BUMPED 4
class ExonViewProperties
{
public:
GtkWidget *widget; /* The exon view */
GtkWidget *bigPicture; /* The big picture that this view belongs to */
BlxStrand currentStrand; /* Which strand of the ref seq this view displays exons for */
gboolean expanded; /* Whether the exon view is expanded or compressed */
int yPad; /* y padding */
GdkRectangle exonViewRect; /* The drawing area for the exon view */
GdkRectangle highlightRect; /* The area that the highlight box will cover (indicating the current detail-view display range) */
int exonHeight; /* the height of an individual exon */
};
/* Utility struct to pass around data required for drawing exons */
typedef struct _DrawData
{
GdkDrawable *drawable;
GdkGC *gc;
GdkRectangle *exonViewRect;
GtkWidget *blxWindow;
BlxContext *bc;
const BlxStrand strand;
const IntRange* const displayRange;
const IntRange* const refSeqRange;
const gboolean displayRev;
const int numFrames;
const BlxSeqType seqType;
gboolean expanded; /* whether exon view is expaned or compressed */
gboolean normalOnly; /* Only draw "normal" MSPs, i.e. thse that are not selected and are not in a group */
int yPad; /* y padding */
int y; /* y position to draw this exon at (constant if view compressed; increases if view bumped) */
int height; /* height of exon box */
} DrawData;
/* Local function declarations */
static GtkWidget* exonViewGetBigPicture(GtkWidget *exonView);
static GtkWidget* exonViewGetBlxWindow(GtkWidget *exonView);
static ExonViewProperties* exonViewGetProperties(GtkWidget *exonView);
/***********************************************************
* Utility functions *
***********************************************************/
/* Calls the given function (passed as the data pointer) on the given widget
* if it is an exon view in the big picture view, or, if it is a container,
* calls the function on all children/grandchildren/etc that are exon views */
void callFuncOnAllBigPictureExonViews(GtkWidget *widget, gpointer data)
{
const gchar *name = gtk_widget_get_name(widget);
if (strcmp(name, BIG_PICTURE_EXON_VIEW_NAME) == 0)
{
GtkCallback func = (GtkCallback)data;
func(widget, NULL);
}
else if (GTK_IS_CONTAINER(widget))
{
gtk_container_foreach(GTK_CONTAINER(widget), callFuncOnAllBigPictureExonViews, data);
}
}
static gboolean calculateExonIntronDimensions(const MSP* const msp,
BlxContext *bc,
const IntRange* const displayRange,
GdkRectangle *exonViewRect,
int *x,
int *width)
{
gboolean drawn = FALSE;
/* Find the coordinates of the start and end base in this msp, converting to display coords. Note
* that display coords always increase from left-to-right, even if the actual coords are inverted. */
const IntRange* const mspDisplayRange = mspGetDisplayRange(msp);
if (rangesOverlap(mspDisplayRange, displayRange))
{
drawn = TRUE;
/* Get the display range in dna coords */
IntRange dnaDispRange;
convertDisplayRangeToDnaRange(displayRange, bc->seqType,
bc->numFrames, bc->displayRev,
&bc->refSeqRange, &dnaDispRange);
/* The grid pos for coords gives the left edge of the coord, so draw to max + 1 to be inclusive */
const int qStart = msp->qRange.min(true, bc->displayRev);
const int qEnd = msp->qRange.max(true, bc->displayRev);
const gint x1 = convertBaseIdxToRectPos(qStart, exonViewRect, &dnaDispRange,
TRUE, bc->displayRev, FALSE);
const gint x2 = convertBaseIdxToRectPos(qEnd, exonViewRect, &dnaDispRange,
TRUE, bc->displayRev, FALSE);
*x = min(x1, x2);
*width = abs(x1 - x2);
}
return drawn;
}
/* Returns true if the given MSP should be shown in this exon view */
static gboolean showMspInExonView(const MSP *msp, const BlxStrand strand, BlxContext *bc)
{
/* Check it's an exon or intron */
gboolean showMsp = mspIsBoxFeature(msp) || mspIsIntron(msp);
/* Check it's in a visible layer */
showMsp &= mspLayerIsVisible(msp);
/* Check it's the correct strand */
showMsp &= (mspGetRefStrand(msp) == strand);
/* Check if its in a group that's hidden */
if (showMsp)
{
list <const SequenceGroup*> groups = bc->getSequenceGroups(msp->sSequence) ;
showMsp &= bc->isGroupVisible(groups, msp->sSequence->type) ;
}
return showMsp;
}
/* Mark the given exon's transcript as selected if this exon contains the given coords.
* Returns true if it was selected. */
static gboolean selectExonIfContainsCoords(GtkWidget *exonView,
ExonViewProperties *properties,
BlxContext *bc,
const IntRange* const displayRange,
const MSP *msp,
const int x,
const int y,
gboolean deselectOthers,
const int mspY,
gboolean *drawn)
{
gboolean wasSelected = FALSE;
if (showMspInExonView(msp, properties->currentStrand, bc) &&
rangesOverlap(displayRange, mspGetDisplayRange(msp)))
{
*drawn = TRUE;
int mspX = UNSET_INT, mspWidth = UNSET_INT;
calculateExonIntronDimensions(msp, bc, displayRange, &properties->exonViewRect, &mspX, &mspWidth);
if (x >= mspX && x <= mspX + mspWidth && y >= mspY && y <= mspY + properties->exonHeight)
{
/* It's a hit. Select this sequence. */
GtkWidget *blxWindow = exonViewGetBlxWindow(exonView);
if (deselectOthers)
{
blxWindowDeselectAllSeqs(blxWindow);
}
blxWindowSelectSeq(blxWindow, msp->sSequence);
/* Update the selected strand */
GtkWidget *detailView = blxWindowGetDetailView(blxWindow);
ExonViewProperties *properties = exonViewGetProperties(exonView);
detailViewSetSelectedStrand(detailView, properties->currentStrand);
/* Scroll the detail view trees to bring the new selection into view */
callFuncOnAllDetailViewTrees(detailView, treeScrollSelectionIntoView, NULL);
wasSelected = TRUE;
}
}
return wasSelected;
}
/* Loop through all the msp lines for this grid and mark them as selected
* if they contain the coords of the mouse press */
static gboolean selectClickedExon(GtkWidget *exonView,
GdkEventButton *event,
const gboolean ctrlModifier,
const gboolean shiftModifier)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
const gboolean deselectOthers = !ctrlModifier && !shiftModifier; /* whether to deselect all others first */
/* Loop through all the MSPs until we find one under the click coords */
GtkWidget *blxWindow = exonViewGetBlxWindow(exonView);
BlxContext *bc = blxWindowGetContext(blxWindow);
GList *seqItem = blxWindowGetAllMatchSeqs(blxWindow);
gboolean found = FALSE;
int y = properties->yPad;
for ( ; seqItem && !found; seqItem = seqItem->next)
{
const BlxSequence* const seq = (const BlxSequence*)(seqItem->data);
GList *mspItem = seq->mspList;
gboolean drawn = FALSE;
for ( ; mspItem && !found; mspItem = mspItem->next)
{
const MSP* const msp = (const MSP*)(mspItem->data);
found = selectExonIfContainsCoords(exonView, properties, bc,
bigPictureGetDisplayRange(properties->bigPicture),
msp, event->x, event->y, deselectOthers, y, &drawn);
}
if (drawn && properties->expanded)
y += properties->exonHeight + properties->yPad;
}
return found;
}
void calculateExonViewHeight(GtkWidget *exonView)
{
DEBUG_ENTER("calculateExonViewHeight");
ExonViewProperties *properties = exonViewGetProperties(exonView);
BigPictureProperties *bpProperties = bigPictureGetProperties(properties->bigPicture);
const IntRange* const displayRange = &bpProperties->displayRange;
BlxContext *bc = blxWindowGetContext(bpProperties->blxWindow());
/* Calculate the height based on how many exon lines will actually be drawn */
int numExons = 0;
int maxExons = properties->expanded ? UNSET_INT : 1; /* unset means no limit */
/* Loop through all sequences */
GList *seqItem = bc->matchSeqs;
for ( ; seqItem; seqItem = seqItem->next)
{
/* Loop through all msps */
const BlxSequence *seq = (BlxSequence*)(seqItem->data);
GList *mspItem = seq->mspList;
for ( ; mspItem; mspItem = mspItem->next)
{
const MSP *msp = (const MSP*)(mspItem->data);
if (showMspInExonView(msp, properties->currentStrand, bc))
{
const IntRange* const mspDisplayRange = mspGetDisplayRange(msp);
if (rangesOverlap(mspDisplayRange, displayRange))
{
++numExons;
break; /* break inner loop and move to next sequence */
}
}
}
/* Break after we've found the maximum number of lines, if a max is specified */
if (maxExons != UNSET_INT && numExons >= maxExons)
{
break;
}
}
const int newHeight = (numExons * (properties->exonHeight + properties->yPad)) + (2 * properties->yPad);
if (newHeight != properties->exonViewRect.height)
{
DEBUG_OUT("Setting new height = %d\n", newHeight);
properties->exonViewRect.height = newHeight;
gtk_widget_set_size_request(exonView, -1, properties->exonViewRect.height);
}
DEBUG_EXIT("calculateExonViewHeight returning");
}
void calculateExonViewHighlightBoxBorders(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
BlxContext *bc = bigPictureGetContext(properties->bigPicture);
/* Get the big picture display range in dna coords */
IntRange bpRange;
convertDisplayRangeToDnaRange(bigPictureGetDisplayRange(properties->bigPicture), bc->seqType, bc->numFrames, bc->displayRev, &bc->refSeqRange, &bpRange);
/* Get the detail view display range in dna coords */
IntRange dvRange;
GtkWidget *detailView = bigPictureGetDetailView(properties->bigPicture);
convertDisplayRangeToDnaRange(detailViewGetDisplayRange(detailView), bc->seqType, bc->numFrames, bc->displayRev, &bc->refSeqRange, &dvRange);
/* Calculate how many pixels from the left edge of the widget to the first base in the range. */
const int x1 = convertBaseIdxToRectPos(dvRange.min(true, bc->displayRev), &properties->exonViewRect, &bpRange, TRUE, bc->displayRev, TRUE);
const int x2 = convertBaseIdxToRectPos(dvRange.max(true, bc->displayRev), &properties->exonViewRect, &bpRange, TRUE, bc->displayRev, TRUE);
properties->highlightRect.x = min(x1, x2);
properties->highlightRect.y = 0;
properties->highlightRect.width = abs(x1 - x2);
properties->highlightRect.height = exonView->allocation.height;
}
static void calculateExonViewBorders(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
BigPictureProperties *bigPictureProperties = bigPictureGetProperties(properties->bigPicture);
/* Calculate the size of the exon view */
properties->exonViewRect.x = roundNearest(bigPictureProperties->contentXPos());
properties->exonViewRect.width = bigPictureProperties->contentWidth();
/* Calculate the size of the highlight box */
calculateExonViewHighlightBoxBorders(exonView);
}
/***********************************************************
* Drawing functions *
***********************************************************/
/* Draw an exon (well, any box-shaped feature, actually) */
static void drawExon(const MSP* const msp,
DrawData *data,
const BlxSequence *blxSeq,
const gboolean isSelected,
const gint x,
const gint y,
const gint widthIn,
const gint height)
{
/* Clip to the drawing area (or just beyond, so we don't get end lines where the exon doesn't really end) */
gint xStart = x;
gint xEnd = x + widthIn;
gint width = widthIn;
const gint xMin = data->exonViewRect->x;
const gint xMax = data->exonViewRect->x + data->exonViewRect->width;
if (xStart <= xMax && xEnd >= xMin)
{
if (xStart < xMin)
{
xStart = xMin - 1;
width = xEnd - xStart;
}
if (xEnd > xMax)
{
xEnd = xMax + 1;
width = xEnd - xStart;
}
/* Draw the fill rectangle */
const GdkColor *fillColor = mspGetColor(msp, data->bc->defaultColors, BLXCOLOR_BACKGROUND, blxSeq, isSelected, data->bc->usePrintColors, TRUE, BLXCOLOR_EXON_FILL, BLXCOLOR_EXON_LINE, BLXCOLOR_CDS_FILL, BLXCOLOR_CDS_LINE, BLXCOLOR_UTR_FILL, BLXCOLOR_UTR_LINE);
gdk_gc_set_foreground(data->gc, fillColor);
gdk_draw_rectangle(data->drawable, data->gc, TRUE, xStart, y, width, height);
/* Draw outline (exon box outline always the same (unselected) color; only intron lines change when selected) */
const GdkColor *lineColor = mspGetColor(msp, data->bc->defaultColors, BLXCOLOR_BACKGROUND, blxSeq, isSelected, data->bc->usePrintColors, FALSE, BLXCOLOR_EXON_FILL, BLXCOLOR_EXON_LINE, BLXCOLOR_CDS_FILL, BLXCOLOR_CDS_LINE, BLXCOLOR_UTR_FILL, BLXCOLOR_UTR_LINE);
gdk_gc_set_foreground(data->gc, lineColor);
gdk_draw_rectangle(data->drawable, data->gc, FALSE, xStart, y, width, height);
}
}
/* Utility to actually draw the line for an intron. Clips it if necessary, maintaining the same
* angle for the line */
static void drawIntronLine(DrawData *data, const gint x1, const gint y1, const gint x2, const gint y2, GdkRectangle *clipRect)
{
/* Only draw anything if at least part of the line is within range. We are only ever called with
* y values that are in range so don't bother checking them. */
const gint xMax = clipRect->x + clipRect->width;
if (x1 <= xMax && x2 >= clipRect->x)
{
int xStart = x1;
int xEnd = x2;
int yStart = y1;
int yEnd = y2;
/* Clip the start/end x values if out of range */
if (xStart < clipRect->x)
{
const int origWidth = abs(xEnd - xStart);
xStart = clipRect->x;
const int newWidth = abs(xEnd - xStart);
const int newHeight = roundNearest((double)(yEnd - yStart) * (double)newWidth / (double)origWidth); /* negative if yend < ystart */
yStart = yEnd - newHeight;
}
if (xEnd > xMax)
{
const int origWidth = abs(xEnd - xStart);
xEnd = xMax;
const int newWidth = abs(xEnd - xStart);
const int newHeight = roundNearest((double)(yEnd - yStart) * (double)newWidth / (double)origWidth);
yEnd = yStart + newHeight;
}
gdk_draw_line(data->drawable, data->gc, xStart, yStart, xEnd, yEnd);
}
}
/* Draw an intron */
static void drawIntron(const MSP* const msp,
DrawData *data,
const BlxSequence *blxSeq,
const gboolean isSelected,
const gint x,
const gint y,
const gint width,
const gint height)
{
const GdkColor *lineColor = mspGetColor(msp, data->bc->defaultColors, BLXCOLOR_BACKGROUND, blxSeq, isSelected, data->bc->usePrintColors, FALSE, BLXCOLOR_EXON_FILL, BLXCOLOR_EXON_LINE, BLXCOLOR_CDS_FILL, BLXCOLOR_CDS_LINE, BLXCOLOR_UTR_FILL, BLXCOLOR_UTR_LINE);
gdk_gc_set_foreground(data->gc, lineColor);
int yTop = y;
int yBottom = y + roundNearest((double)height / 2.0);
/* Draw the first section, from the given x to the mid point, sloping up */
int xStart = x;
int xEnd = x + roundNearest((double)width / 2.0);
drawIntronLine(data, xStart, yBottom, xEnd, yTop, data->exonViewRect);
/* Draw the second section, from the mid point to the end, sloping down */
xStart = xEnd;
xEnd = x + width;
drawIntronLine(data, xStart, yTop, xEnd, yBottom, data->exonViewRect);
}
/* Draw the given exon/intron, if it is in range. Returns true if it was drawn */
static gboolean drawExonIntron(const MSP *msp,
DrawData *data,
const gboolean isSelected,
const BlxSequence *blxSeq)
{
int x = UNSET_INT, width = UNSET_INT;
gboolean drawn = calculateExonIntronDimensions(msp, data->bc, data->displayRange,
data->exonViewRect, &x, &width);
if (drawn)
{
if (mspIsBoxFeature(msp))
{
drawExon(msp, data, blxSeq, isSelected, x, data->y, width, data->height);
}
else if (mspIsIntron(msp))
{
drawIntron(msp, data, blxSeq, isSelected, x, data->y, width, data->height);
}
}
return drawn;
}
/* Draw the msps in the given sequence, if they are exons/introns. Use the color
* specified in the user data */
static void drawExonIntronItem(gpointer listItemData, gpointer data)
{
const BlxSequence *seq = (const BlxSequence*)listItemData;
DrawData *drawData = (DrawData*)data;
const gboolean isSelected = blxWindowIsSeqSelected(drawData->blxWindow, seq);
SequenceGroup *group = drawData->bc->getFirstSequenceGroup(seq);
gboolean seqDrawn = FALSE;
if (!drawData->normalOnly || (!isSelected && !group))
{
/* Loop through all msps in this sequence */
GList *mspListItem = seq->mspList;
for ( ; mspListItem; mspListItem = mspListItem->next)
{
MSP *msp = (MSP*)(mspListItem->data);
if (showMspInExonView(msp, drawData->strand, drawData->bc))
{
seqDrawn |= drawExonIntron(msp, drawData, isSelected, seq);
}
}
}
/* If the view is expanded, increase the y-coord for the next sequence */
if (seqDrawn && drawData->expanded)
{
drawData->y += drawData->height + drawData->yPad;
}
}
/* Draw the exon view */
static void drawExonView(GtkWidget *exonView, GdkDrawable *drawable)
{
GtkWidget *blxWindow = exonViewGetBlxWindow(exonView);
BlxContext *bc = blxWindowGetContext(blxWindow);
ExonViewProperties *properties = exonViewGetProperties(exonView);
const IntRange* const displayRange = bigPictureGetDisplayRange(properties->bigPicture);
/* First, highlight any assembly gaps */
/* Get the display range in dna coords */
IntRange bpRange;
convertDisplayRangeToDnaRange(displayRange, bc->seqType, bc->numFrames, bc->displayRev, &bc->refSeqRange, &bpRange);
GdkColor *gapColor = getGdkColor(BLXCOLOR_ASSEMBLY_GAP, bc->defaultColors, FALSE, bc->usePrintColors);
drawAssemblyGaps(exonView, drawable, gapColor, bc->displayRev, &properties->exonViewRect, &bpRange, bc->featureLists[BLXMSP_GAP]);
/* Set a clip rectangle for drawing the exons and introns (because they are drawn "over the
* edges" to make sure intron lines have the correct slope etc.) */
GdkGC *gc = gdk_gc_new(drawable);
gdk_gc_set_clip_origin(gc, 0, 0);
gdk_gc_set_clip_rectangle(gc, &properties->exonViewRect);
/* Draw the exons and introns. Since we could have a lot of them in the loop, extract all the
* info we need now and pass it around so we don't have to look for this stuff each time. */
DrawData drawData = {
drawable,
gc,
&properties->exonViewRect,
blxWindow,
bc,
properties->currentStrand,
displayRange,
&bc->refSeqRange,
bc->displayRev,
bc->numFrames,
bc->seqType,
properties->expanded,
FALSE,
properties->yPad,
properties->exonViewRect.y,
properties->exonHeight
};
/* If the view is compressed (i.e. exons will overlap each other), then
* only draw "normal" MSPs the first time round, and draw grouped/selected
* MSPs afterwards, so that they appear on top. If the view is expanded,
* we can draw them all in a single loop, because they will not overlap. */
drawData.normalOnly = !properties->expanded;
/* Loop through all sequences, drawing all msps that are exons/introns */
GList *seqList = blxWindowGetAllMatchSeqs(blxWindow);
g_list_foreach(seqList, drawExonIntronItem, &drawData);
if (!properties->expanded)
{
drawData.normalOnly = FALSE;
/* Draw all selected msps */
g_list_foreach(bc->selectedSeqs, drawExonIntronItem, &drawData);
/* Increment the y value when finished, because we calculate the view height based on this */
drawData.y += drawData.height + drawData.yPad;
}
/* Set the height based on the height of the exons that were actually drawn */
const int newHeight = drawData.y - properties->exonViewRect.y + drawData.yPad;
gtk_layout_set_size(GTK_LAYOUT(exonView), exonView->allocation.width, newHeight);
g_object_unref(gc);
}
/* Prepare the exon view for printing (draws the transient hightlight box
* onto the cached drawable). */
void exonViewPrepareForPrinting(GtkWidget *exonView)
{
GdkDrawable *drawable = widgetGetDrawable(exonView);
if (drawable)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
BlxContext *bc = bigPictureGetContext(properties->bigPicture);
GdkColor *highlightBoxColor = getGdkColor(BLXCOLOR_HIGHLIGHT_BOX, bc->defaultColors, FALSE, bc->usePrintColors);
drawHighlightBox(drawable, &properties->highlightRect, HIGHLIGHT_BOX_MIN_WIDTH, highlightBoxColor);
}
}
/***********************************************************
* Properties *
***********************************************************/
static ExonViewProperties* exonViewGetProperties(GtkWidget *exonView)
{
return exonView ? (ExonViewProperties*)(g_object_get_data(G_OBJECT(exonView), "ExonViewProperties")) : NULL;
}
static void onDestroyExonView(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
if (properties)
{
delete properties;
properties = NULL;
g_object_set_data(G_OBJECT(exonView), "ExonViewProperties", NULL);
}
}
static void exonViewCreateProperties(GtkWidget *exonView,
GtkWidget *bigPicture,
const BlxStrand currentStrand)
{
if (exonView)
{
ExonViewProperties *properties = new ExonViewProperties;
properties->widget = exonView;
properties->bigPicture = bigPicture;
properties->currentStrand = currentStrand;
properties->expanded = FALSE;
properties->yPad = DEFAULT_EXON_YPAD;
properties->exonViewRect.x = 0;
properties->exonViewRect.y = DEFAULT_EXON_YPAD;
properties->exonViewRect.width = 0;
properties->exonViewRect.height = DEFAULT_EXON_HEIGHT;
properties->exonHeight = DEFAULT_EXON_HEIGHT;
gtk_widget_set_size_request(exonView, 0, DEFAULT_EXON_HEIGHT + (2 * DEFAULT_EXON_YPAD));
g_object_set_data(G_OBJECT(exonView), "ExonViewProperties", properties);
g_signal_connect(G_OBJECT(exonView), "destroy", G_CALLBACK(onDestroyExonView), NULL);
}
}
static GtkWidget* exonViewGetBigPicture(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
return properties->bigPicture;
}
static GtkWidget* exonViewGetBlxWindow(GtkWidget *exonView)
{
GtkWidget *bigPicture = exonViewGetBigPicture(exonView);
return bigPictureGetBlxWindow(bigPicture);
}
gboolean exonViewGetExpanded(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
return properties->expanded;
}
/* Set whether the view is expanded or not */
void exonViewSetExpanded(GtkWidget *exonView, const gboolean expanded)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
properties->expanded = expanded;
if (expanded)
{
properties->yPad = DEFAULT_EXON_YPAD_BUMPED;
properties->exonHeight = DEFAULT_EXON_HEIGHT_BUMPED;
}
else
{
properties->yPad = DEFAULT_EXON_YPAD;
properties->exonHeight = DEFAULT_EXON_HEIGHT;
}
calculateExonViewHeight(exonView);
forceResize(properties->bigPicture);
bigPictureRedrawAll(properties->bigPicture);
}
/* Toggle whether the view is expanded or not */
void exonViewToggleExpanded(GtkWidget *exonView)
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
exonViewSetExpanded(exonView, !properties->expanded);
}
/***********************************************************
* Events *
***********************************************************/
static gboolean onExposeExonView(GtkWidget *exonView, GdkEventExpose *event, gpointer data)
{
GdkDrawable *drawable = widgetGetDrawable(exonView);
if (!drawable)
{
/* Create a pixmap and draw the exon view onto it */
drawable = createBlankPixmap(exonView);
drawExonView(exonView, drawable);
}
if (drawable)
{
/* Push the pixmap onto the screen */
GdkDrawable *window = GTK_LAYOUT(exonView)->bin_window;
GdkGC *gc = gdk_gc_new(window);
gdk_draw_drawable(window, gc, drawable, 0, 0, 0, 0, -1, -1);
g_object_unref(gc);
/* Draw the highlight box on top of it */
ExonViewProperties *properties = exonViewGetProperties(exonView);
BigPictureProperties *bpProperties = bigPictureGetProperties(properties->bigPicture);
BlxContext *bc = blxWindowGetContext(bpProperties->blxWindow());
GdkColor *highlightBoxColor = getGdkColor(BLXCOLOR_HIGHLIGHT_BOX, bc->defaultColors, FALSE, bc->usePrintColors);
drawHighlightBox(window, &properties->highlightRect, HIGHLIGHT_BOX_MIN_WIDTH, highlightBoxColor);
/* Draw the preview box too, if it is set */
bpProperties->drawPreviewBox(window, &properties->exonViewRect, &properties->highlightRect);
}
return TRUE;
}
static void onSizeAllocateExonView(GtkWidget *exonView, GtkAllocation *allocation, gpointer data)
{
DEBUG_ENTER("onSizeAllocateExonView");
calculateExonViewBorders(exonView);
DEBUG_EXIT("onSizeAllocateExonView returning");
}
static gboolean onButtonPressExonView(GtkWidget *exonView, GdkEventButton *event, gpointer data)
{
gboolean handled = FALSE;
if (event->button == 1) /* left button */
{
/* If we clicked on top of an exon, select that msp */
const gboolean ctrlModifier = (event->state & GDK_CONTROL_MASK) == GDK_CONTROL_MASK;
const gboolean shiftModifier = (event->state & GDK_SHIFT_MASK) == GDK_SHIFT_MASK;
handled = selectClickedExon(exonView, event, ctrlModifier, shiftModifier);
}
ExonViewProperties *properties = exonViewGetProperties(exonView);
if (event->button == 2 ||
(event->button == 1 && !handled &&
(event->type == GDK_2BUTTON_PRESS ||
clickedInRect(event, &properties->highlightRect, HIGHLIGHT_BOX_MIN_WIDTH))))
{
/* Draw the preview box (draw it on the other big picture components as well) */
int x = event->x;
if (event->button == 1 && event->type == GDK_BUTTON_PRESS)
x = properties->highlightRect.x + properties->highlightRect.width / 2;
BigPictureProperties *bpProperties = bigPictureGetProperties(properties->bigPicture);
bpProperties->startPreviewBox(event->x, TRUE, x - event->x);
handled = TRUE;
}
return handled;
}
static gboolean onButtonReleaseExonView(GtkWidget *exonView, GdkEventButton *event, gpointer data)
{
if (event->button == 1 || event->button == 2) /* left or middle button */
{
ExonViewProperties *properties = exonViewGetProperties(exonView);
BigPictureProperties *bpProperties = bigPictureGetProperties(properties->bigPicture);
bpProperties->finishPreviewBox(event->x, &properties->exonViewRect, &properties->highlightRect);
}
return TRUE;
}
static gboolean onMouseMoveExonView(GtkWidget *exonView, GdkEventMotion *event, gpointer data)
{
if ((event->state & GDK_BUTTON1_MASK) || (event->state & GDK_BUTTON2_MASK)) /* left or middle button */
{
/* Draw a preview box at the mouse pointer location */
ExonViewProperties *properties = exonViewGetProperties(exonView);
BigPictureProperties *bpProperties = bigPictureGetProperties(properties->bigPicture);
bpProperties->startPreviewBox(event->x, FALSE, 0);
}
return TRUE;
}
/* Implement custom scrolling for horizontal mouse wheel movements over the grid.
* This scrolls the position of the highlight box, i.e. it scrolls the display
* range in the detail view. */
static gboolean onScrollExonView(GtkWidget *exonView, GdkEventScroll *event, gpointer data)
{
gboolean handled = FALSE;
switch (event->direction)
{
case GDK_SCROLL_LEFT:
{
scrollBigPictureLeftStep(exonViewGetBigPicture(exonView));
handled = TRUE;
break;
}
case GDK_SCROLL_RIGHT:
{
scrollBigPictureRightStep(exonViewGetBigPicture(exonView));
handled = TRUE;
break;
}
default:
{
handled = FALSE;
break;
}
};
return handled;
}
/***********************************************************
* Initialisation *
***********************************************************/
/* Create the part of the view that will show the exons */
GtkWidget *createExonView(GtkWidget *bigPicture, const BlxStrand currentStrand)
{
GtkWidget *exonView = gtk_layout_new(NULL, NULL);
gtk_widget_set_name(exonView, BIG_PICTURE_EXON_VIEW_NAME);
/* Connect signals */
gtk_widget_add_events(exonView, GDK_BUTTON_PRESS_MASK);
gtk_widget_add_events(exonView, GDK_BUTTON_RELEASE_MASK);
gtk_widget_add_events(exonView, GDK_POINTER_MOTION_MASK);
g_signal_connect(G_OBJECT(exonView), "expose-event", G_CALLBACK(onExposeExonView), NULL);
g_signal_connect(G_OBJECT(exonView), "size-allocate", G_CALLBACK(onSizeAllocateExonView), NULL);
g_signal_connect(G_OBJECT(exonView), "button-press-event", G_CALLBACK(onButtonPressExonView), NULL);
g_signal_connect(G_OBJECT(exonView), "button-release-event", G_CALLBACK(onButtonReleaseExonView), NULL);
g_signal_connect(G_OBJECT(exonView), "motion-notify-event", G_CALLBACK(onMouseMoveExonView), NULL);
g_signal_connect(G_OBJECT(exonView), "scroll-event", G_CALLBACK(onScrollExonView), NULL);
exonViewCreateProperties(exonView, bigPicture, currentStrand);
return exonView;
}
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